SMTL ID : 4rut.1 (1 other biounit)

crystal structure of murine cyclooxygenase-2 with 13-methyl-arachidonic Acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 6 residues within 4Å: Chain A: E.109, N.113, Y.116, R.185, F.189 Chain B: L.207 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.185 NAG-NAG.2: 6 residues within 4Å: Chain A: L.207 Chain B: E.109, N.113, Y.116, R.185, F.189 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Water bridges: A:L.207 Hydrogen bonds: B:R.185

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 5 residues within 4Å: Chain A: S.6, P.8, Y.23, E.35, N.36 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.8 Hydrogen bonds: A:Y.23, A:E.35 NAG.4: 6 residues within 4Å: Chain A: K.374, Q.375, N.379, S.381, I.382, E.385 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.379, A:E.385, A:E.385 NAG.7: 5 residues within 4Å: Chain B: S.6, P.8, Y.23, E.35, N.36 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:P.8 Hydrogen bonds: B:Y.23, B:E.35 NAG.8: 5 residues within 4Å: Chain B: Q.375, N.379, S.381, I.382, E.385 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.379, B:E.385

2 x COH: PROTOPORPHYRIN IX CONTAINING CO(Non-covalent)

COH.5: 18 residues within 4Å: Chain A: Y.117, A.168, A.171, Q.172, H.176, F.179, K.180, T.181, H.183, V.264, N.351, Y.354, H.355, W.356, H.357, L.359, L.360, V.416 17 PLIP interactions: 17 interactions with chain A, Hydrophobic interactions: A:A.171, A:Q.172, A:Q.172, A:F.179, A:V.264, A:W.356, A:L.359, A:L.360, A:V.416 Hydrogen bonds: A:Y.117, A:T.181, A:T.181, A:N.351 Water bridges: A:H.176, A:F.179 Salt bridges: A:H.183 pi-Stacking: A:H.176 COH.9: 21 residues within 4Å: Chain B: Y.117, A.168, F.169, A.171, Q.172, T.175, H.176, F.179, K.180, T.181, H.183, V.264, N.351, Y.354, H.355, W.356, H.357, L.360, L.377, V.413, V.416 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:F.169, B:A.171, B:Q.172, B:Q.172, B:F.179, B:V.264, B:W.356, B:L.360, B:L.377, B:V.413, B:V.416 Hydrogen bonds: B:Y.117, B:T.181, B:N.351 Salt bridges: B:H.183 pi-Stacking: B:H.176 Metal complexes: B:H.357

2 x LM8: (5Z,8Z,11Z,13S,14Z)-13-methylicosa-5,8,11,14-tetraenoic acid(Non-covalent)

LM8.6: 18 residues within 4Å: Chain A: M.82, L.86, F.174, I.314, Y.317, V.318, Y.324, L.328, Y.354, W.356, M.491, V.492, G.495, A.496, S.499, L.500, L.503, M.504 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:L.86, A:I.314, A:I.314, A:Y.317, A:V.318, A:V.318, A:L.328, A:Y.354, A:W.356, A:W.356, A:V.492, A:A.496, A:L.500, A:L.503 Hydrogen bonds: A:S.499 LM8.10: 17 residues within 4Å: Chain B: M.82, L.86, F.174, I.314, Y.317, V.318, Y.324, L.328, Y.354, W.356, M.491, V.492, G.495, A.496, S.499, L.503, M.504 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.86, B:I.314, B:I.314, B:Y.317, B:V.318, B:V.318, B:L.328, B:W.356, B:V.492, B:A.496, B:L.503 Hydrogen bonds: B:Y.354, B:S.499

1 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.11: 7 residues within 4Å: Chain B: E.148, K.149, R.153, R.154, R.407, E.455, E.459 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:E.148 Hydrogen bonds: B:K.149, B:K.149, B:R.154, B:R.154, B:R.407, B:E.455, B:E.459, B:E.459 Salt bridges: B:R.154, B:R.407

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kudalkar, S.N. et al., 13-methylarachidonic Acid is a positive allosteric modulator of endocannabinoid oxygenation by cyclooxygenase. J.Biol.Chem. (2015)

Release Date

2015-02-11

Peptides

Prostaglandin G/H synthase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Prostaglandin G/H synthase 2

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